Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 61 of 195
Found at i:12312728 original size:14 final size:13
Alignment explanation
Indices: 12312699--12312757 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
12312689 ATAAAAAACT
12312699 AAAAATAAAAACTTA
1 AAAAAT-AAAA-TTA
12312714 AGAAAATAAAATTAA
1 A-AAAATAAAATT-A
* *
12312729 AAAAATGAAATTG
1 AAAAATAAAATTA
12312742 AAAAATAAAA-TA
1 AAAAATAAAATTA
12312754 AAAA
1 AAAA
12312758 TTGAAAAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 5 0.13
13 9 0.24
14 12 0.32
15 7 0.18
16 5 0.13
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATTA
Found at i:12314424 original size:98 final size:98
Alignment explanation
Indices: 12314255--12314450 Score: 365
Period size: 98 Copynumber: 2.0 Consensus size: 98
12314245 TTTCAGTATC
*
12314255 TATTCATGGAAACCCATAAAGACCTGTTTCTAACCAAATTATAGTCTGAAAGTCATAATCTTCTA
1 TATTCATGGAAACCCATAAAGACCTGTTTCTAACCAAAGTATAGTCTGAAAGTCATAATCTTCTA
12314320 GATTGGTAGATCCTATATTGTACATCCTTGAGA
66 GATTGGTAGATCCTATATTGTACATCCTTGAGA
*
12314353 TATTCATGGAAACCCATAAAGACCTGTTTCTAACCAAAGTATAGTCTGAAAGTCATATTCTTCTA
1 TATTCATGGAAACCCATAAAGACCTGTTTCTAACCAAAGTATAGTCTGAAAGTCATAATCTTCTA
*
12314418 GATTGGTAGATCCTATATTGTACATTCTTGAGA
66 GATTGGTAGATCCTATATTGTACATCCTTGAGA
12314451 CAAAATATTG
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (98 bp):
TATTCATGGAAACCCATAAAGACCTGTTTCTAACCAAAGTATAGTCTGAAAGTCATAATCTTCTA
GATTGGTAGATCCTATATTGTACATCCTTGAGA
Found at i:12322983 original size:28 final size:26
Alignment explanation
Indices: 12322952--12323035 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 26
12322942 ATAAAAAAAC
*
12322952 TATTAAAATGATATGTAATATTCAAATA
1 TATTAAAAT-ATAT-TAATATTAAAATA
*
12322980 TATTTAAATATATTCAATATTAAAATAA
1 TATTAAAATATATT-AATATTAAAAT-A
*
12323008 TATTAAAGTAATATTAATATTAAAATA
1 TATTAAAAT-ATATTAATATTAAAATA
12323035 T
1 T
12323036 TACTAATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
26 1 0.02
27 16 0.33
28 27 0.55
29 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
TATTAAAATATATTAATATTAAAATA
Found at i:12323011 original size:11 final size:11
Alignment explanation
Indices: 12322995--12323024 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12322985 AAATATATTC
12322995 AATATTAAAAT
1 AATATTAAAAT
*
12323006 AATATTAAAGT
1 AATATTAAAAT
12323017 AATATTAA
1 AATATTAA
12323025 TATTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:12323042 original size:17 final size:17
Alignment explanation
Indices: 12323005--12323046 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12322995 AATATTAAAA
* *
12323005 TAATATTAAAGTAATAT
1 TAATATTAAAATAATAC
*
12323022 TAATATTAAAATATTAC
1 TAATATTAAAATAATAC
12323039 TAAT-TTAA
1 TAATATTAA
12323047 CTTTTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATATTAAAATAATAC
Found at i:12323079 original size:18 final size:18
Alignment explanation
Indices: 12323056--12323140 Score: 60
Period size: 18 Copynumber: 5.1 Consensus size: 18
12323046 ACTTTTATTA
12323056 TAAAATATTATTAAATAT
1 TAAAATATTATTAAATAT
*
12323074 TAAAATATGATTAAA-A-
1 TAAAATATTATTAAATAT
*
12323090 T-AAA-A-T-TT-AGTAT
1 TAAAATATTATTAAATAT
*
12323103 TAAAATATTATTAAAATAA
1 TAAAATATTATT-AAATAT
* *
12323122 TATAA-ATTATTAAAAAT
1 TAAAATATTATTAAATAT
12323139 TA
1 TA
12323141 TTAATTTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 17
0.67 0.11 0.22
Matches are distributed among these distances:
11 1 0.02
12 3 0.06
13 1 0.02
14 4 0.08
15 4 0.08
16 2 0.04
17 9 0.18
18 20 0.39
19 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAATATTATTAAATAT
Found at i:12323080 original size:46 final size:47
Alignment explanation
Indices: 12323008--12323117 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 47
12322998 ATTAAAATAA
* * * ** ** *
12323008 TATTAAAGTAATATT-AATATTAAAATATTACTAATTTAACTTTTAT
1 TATTAAAATATTATTAAATATTAAAATATGACTAAAATAAAATTTAG
*
12323054 TA-TAAAATATTATTAAATATTAAAATATGATTAAAATAAAATTTAG
1 TATTAAAATATTATTAAATATTAAAATATGACTAAAATAAAATTTAG
12323100 TATTAAAATATTATTAAA
1 TATTAAAATATTATTAAA
12323118 ATAATATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
45 10 0.19
46 28 0.53
47 15 0.28
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (47 bp):
TATTAAAATATTATTAAATATTAAAATATGACTAAAATAAAATTTAG
Found at i:12323132 original size:29 final size:29
Alignment explanation
Indices: 12323051--12323296 Score: 118
Period size: 29 Copynumber: 8.4 Consensus size: 29
12323041 ATTTAACTTT
*
12323051 TATTA-TAAAATATTATTAAA-TATTAAAA
1 TATTATTAAAATAATA-TAAATTATTAAAA
* * ** *
12323079 TATGATTAAAATAAAATTTAGTATTAAAA
1 TATTATTAAAATAATATAAATTATTAAAA
12323108 TATTATTAAAATAATATAAATTATTAAAA
1 TATTATTAAAATAATATAAATTATTAAAA
** * *
12323137 -ATTATTAATTTAATATTTAA-TGTTAAAA
1 TATTATTAAAATAATA-TAAATTATTAAAA
* * *
12323165 T-TAAATTAAAAATTATTATAAACCTAATT-AAA
1 TAT-TATT-AAAA-TAATATAAA--TTATTAAAA
* * **
12323197 TAATATTAAAA-AGTTAATAAATTAATATTTAA
1 TATTATTAAAATA-AT-ATAAATT-AT-TAAAA
*
12323229 TATTATTAAAATAATATTAAA-TATTATAA
1 TATTATTAAAATAATA-TAAATTATTAAAA
* *
12323258 TAATATT-AAATAATAT--TTTATATAAAA
1 TATTATTAAAATAATATAAATTAT-TAAAA
12323285 TATTATTAAAAT
1 TATTATTAAAAT
12323297 GTTAATATAA
Statistics
Matches: 165, Mismatches: 32, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
26 3 0.02
27 11 0.07
28 39 0.24
29 58 0.35
30 11 0.07
31 16 0.10
32 24 0.15
33 3 0.02
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (29 bp):
TATTATTAAAATAATATAAATTATTAAAA
Found at i:12323238 original size:21 final size:21
Alignment explanation
Indices: 12323191--12323509 Score: 199
Period size: 21 Copynumber: 15.9 Consensus size: 21
12323181 TATAAACCTA
* *
12323191 ATTAAA-TAATATTAAAAAGTT
1 ATTAAATTAATATTTAATA-TT
*
12323212 AATAAATTAATATTTAATATT
1 ATTAAATTAATATTTAATATT
* *
12323233 ATTAAAATAATATTAAATATT
1 ATTAAATTAATATTTAATATT
* *
12323254 A-T-AA-TAATATTAAATAAT
1 ATTAAATTAATATTTAATATT
**
12323272 ATT---TT-ATATAAAATATT
1 ATTAAATTAATATTTAATATT
* *
12323289 ATTAAA---AT-GTTAATATA
1 ATTAAATTAATATTTAATATT
12323306 ATAT-AATTAATATTTAATATT
1 AT-TAAATTAATATTTAATATT
* *
12323327 ATTAAAATGAATATTTAATATG
1 ATT-AAATTAATATTTAATATT
* * *
12323349 AATAAATTATTATTTAATACT
1 ATTAAATTAATATTTAATATT
* ** *
12323370 GTTCTA-TAATCTTTAATATT
1 ATTAAATTAATATTTAATATT
*
12323390 -TTAAA-TAATAGTTAATATT
1 ATTAAATTAATATTTAATATT
*
12323409 ATTAAA-TAAGTATTTAATAAT
1 ATTAAATTAA-TATTTAATATT
**
12323430 ATTAAATTAATATAAAATATT
1 ATTAAATTAATATTTAATATT
**
12323451 ATTAAATTAATATAAAATATT
1 ATTAAATTAATATTTAATATT
* *
12323472 A-TGAATTAATATTTAATATG
1 ATTAAATTAATATTTAATATT
*
12323492 ATTTAAA-TAATGTTTAAT
1 A-TTAAATTAATATTTAAT
12323510 TTTAAAAAAT
Statistics
Matches: 236, Mismatches: 44, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
17 22 0.09
18 18 0.08
19 18 0.08
20 39 0.17
21 106 0.45
22 33 0.14
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTAAATTAATATTTAATATT
Found at i:12323244 original size:93 final size:93
Alignment explanation
Indices: 12323111--12323347 Score: 229
Period size: 93 Copynumber: 2.5 Consensus size: 93
12323101 ATTAAAATAT
* * * ** *
12323111 TATTAAAATAATATAA--ATTATTAAAAATTATTAATTTAATATTTAATGTTAAAATTAA-ATTA
1 TATTAAAATAATATAATTAATATTTAATATTATTAAAATAATATTTAATATTAAAA-TAATATTA
**
12323173 AA-AAT-TATTATA-AACCTAATTA-AATAA
65 AATAATATATTATATAAAAT-ATTATAA-AA
* *
12323200 TATTAAAAAGTTAATA-AATTAATATTTAATATTATTAAAATAATATTAAATATTATAATAATAT
1 TATT-AAAA--TAATATAATTAATATTTAATATTATTAAAATAATATTTAATATTAAAATAATAT
*
12323264 TAAATAATATTTTATATAAAATATTATTAAAA
63 TAAATAATATATTATATAAAATATTA-TAAAA
* *
12323296 TGTTAATATAATATAATTAATATTTAATATTATTAAAATGAATATTTAATAT
1 TATTAAAATAATATAATTAATATTTAATATTATTAAAAT-AATATTTAATAT
12323348 GAATAAATTA
Statistics
Matches: 121, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
89 4 0.03
90 4 0.03
91 2 0.02
92 8 0.07
93 41 0.34
94 28 0.23
95 24 0.20
96 8 0.07
97 2 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (93 bp):
TATTAAAATAATATAATTAATATTTAATATTATTAAAATAATATTTAATATTAAAATAATATTAA
ATAATATATTATATAAAATATTATAAAA
Found at i:12323253 original size:18 final size:18
Alignment explanation
Indices: 12323194--12323269 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 18
12323184 AAACCTAATT
*
12323194 AAATAATATTAAAAAGTTAA
1 AAATAATATTAAATA-TT-A
12323214 TAAATTAATATTTAATATTATTA
1 -AAA-TAATA-TTAA-A-TATTA
12323237 AAATAATATTAAATATTA
1 AAATAATATTAAATATTA
*
12323255 TAATAATATTAAATA
1 AAATAATATTAAATA
12323270 ATATTTTATA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 19 0.39
19 1 0.02
20 4 0.08
21 8 0.16
22 8 0.16
23 5 0.10
24 3 0.06
25 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
AAATAATATTAAATATTA
Found at i:12323286 original size:45 final size:45
Alignment explanation
Indices: 12323231--12323325 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 45
12323221 ATATTTAATA
12323231 TTAT-TAAAATAATATT-AAATATT-ATAATAATATTAAATAATATT
1 TTATATAAAATAATATTAAAATATTAAT-ATAATA-TAAATAATATT
* * *
12323275 TTATATAAAATATTATTAAAATGTTAATATAATATAATTAATATT
1 TTATATAAAATAATATTAAAATATTAATATAATATAAATAATATT
*
12323320 TAATAT
1 TTATAT
12323326 TATTAAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
44 4 0.09
45 26 0.59
46 12 0.27
47 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (45 bp):
TTATATAAAATAATATTAAAATATTAATATAATATAAATAATATT
Found at i:12323314 original size:22 final size:21
Alignment explanation
Indices: 12323274--12323367 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 21
12323264 TAAATAATAT
* *
12323274 TTTATATAAAATATTATTAAAA
1 TTTA-ATATAATATAATTAAAA
*
12323296 TGTTAATATAATATAATTAATA
1 T-TTAATATAATATAATTAAAA
* * * *
12323318 TTTAATATTATTAAAATGAATA
1 TTTAATA-TAATATAATTAAAA
**
12323340 TTTAATATGAATA-AATTATTA
1 TTTAATAT-AATATAATTAAAA
12323361 TTTAATA
1 TTTAATA
12323368 CTGTTCTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 20 0.33
22 37 0.62
23 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTAATATAATATAATTAAAA
Found at i:12323325 original size:38 final size:35
Alignment explanation
Indices: 12323240--12323335 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 35
12323230 ATTATTAAAA
*
12323240 TAATATTAAATATTA-TAATAATATTAAATAATATT
1 TAATATTAAATATTATTAA-AATGTTAAATAATATT
* *
12323275 TTATATAAAATATTATTAAAATGTTAATATAATATAAT
1 TAATATTAAATATTATTAAAATGTTAA-ATAATAT--T
*
12323313 TAATATTTAATATTATTAAAATG
1 TAATATTAAATATTATTAAAATG
12323336 AATATTTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 20 0.39
36 10 0.20
38 21 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (35 bp):
TAATATTAAATATTATTAAAATGTTAAATAATATT
Found at i:12323422 original size:11 final size:10
Alignment explanation
Indices: 12323390--12323502 Score: 77
Period size: 10 Copynumber: 10.9 Consensus size: 10
12323380 CTTTAATATT
12323390 TTAAATAATA
1 TTAAATAATA
*
12323400 GTT-AATATTA
1 -TTAAATAATA
12323410 TTAAATAAGTA
1 TTAAATAA-TA
*
12323421 TTTAATAATA
1 TTAAATAATA
12323431 TTAAATTAATA
1 TTAAA-TAATA
* *
12323442 TAAAATATTA
1 TTAAATAATA
12323452 TTAAATTAATA
1 TTAAA-TAATA
* *
12323463 TAAAATATTA
1 TTAAATAATA
* *
12323473 TGAATTAATA
1 TTAAATAATA
*
12323483 TTTAAT-ATGA
1 TTAAATAAT-A
12323493 TTTAAATAAT
1 -TTAAATAAT
12323503 GTTTAATTTT
Statistics
Matches: 78, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
9 4 0.05
10 39 0.50
11 33 0.42
12 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (10 bp):
TTAAATAATA
Found at i:12323582 original size:16 final size:17
Alignment explanation
Indices: 12323556--12323596 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
12323546 AATTAATAAT
12323556 ATTTAATTATTA-TATTA
1 ATTT-ATTATTATTATTA
12323573 ATTTATTATTATTATTA
1 ATTTATTATTATTATTA
*
12323590 TTTTATT
1 ATTTATT
12323597 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATTATTATTATTA
Found at i:12323595 original size:17 final size:16
Alignment explanation
Indices: 12323555--12323596 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
12323545 TAATTAATAA
*
12323555 TATTTAATTATTATAT
1 TATTTTATTATTATAT
*
12323571 TAATTTATTATTATTAT
1 TATTTTATTATTA-TAT
12323588 TATTTTATT
1 TATTTTATT
12323597 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTATTATAT
Found at i:12324102 original size:37 final size:38
Alignment explanation
Indices: 12324032--12324112 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 38
12324022 AGTAATTAAA
* *
12324032 ATTTTATATGTAATAATATTAAGTATATGTATTTTA-G
1 ATTTTATATGTAATAATATTAAATATAAGTATTTTACG
12324069 ATTTTATATGTAATAATATTAAATA-AAGATATTTTACG
1 ATTTTATATGTAATAATATTAAATATAAG-TATTTTACG
12324107 -TTTTAT
1 ATTTTAT
12324113 TTTGTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 2 0.05
37 37 0.93
38 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.51
Consensus pattern (38 bp):
ATTTTATATGTAATAATATTAAATATAAGTATTTTACG
Found at i:12324267 original size:71 final size:72
Alignment explanation
Indices: 12324161--12324341 Score: 215
Period size: 71 Copynumber: 2.5 Consensus size: 72
12324151 CTTAGAAAAA
* * * ** * *
12324161 TCATTTTTTCAATAAAAATTACCCTTTTATCTTAGAAATGT-ATTTTTTATTGAATTTTGAAAA-
1 TCATATTTTCAACAAAAACTACATTTTTATCTTAGAAATGTCA-TCTTTATTGAATTCTGAAAAT
12324224 ATATACTTT
65 ATATA-TTT
* * *
12324233 TCATGTTTTCAACAAAAACTA-TTTTTTATCTTAGAAATGTCATCTTTATTGAATTCTGAAAATT
1 TCATATTTTCAACAAAAACTACATTTTTATCTTAGAAATGTCATCTTTATTGAATTCTGAAAATA
12324297 TATATTT
66 TATATTT
* *
12324304 TCATATTTTCAATAAAAACTACATTTTTACCTTAGAAA
1 TCATATTTTCAACAAAAACTACATTTTTATCTTAGAAA
12324342 CATTGTCTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 57 0.61
72 37 0.39
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (72 bp):
TCATATTTTCAACAAAAACTACATTTTTATCTTAGAAATGTCATCTTTATTGAATTCTGAAAATA
TATATTT
Found at i:12324814 original size:18 final size:21
Alignment explanation
Indices: 12324774--12324815 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12324764 TTTACAACAA
*
12324774 AAAAACTATGTTTTTTATTTT
1 AAAAACTATGTTTTTTATGTT
12324795 AAAAACT-T-TTTTTT-TGTT
1 AAAAACTATGTTTTTTATGTT
12324813 AAA
1 AAA
12324816 TTCTAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 1 0.05
21 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
AAAAACTATGTTTTTTATGTT
Found at i:12324875 original size:117 final size:115
Alignment explanation
Indices: 12324668--12324879 Score: 255
Period size: 117 Copynumber: 1.8 Consensus size: 115
12324658 TAAAGATTAC
* * *
12324668 GTTTTCTATTTTAGAAACATCTTTTTTGTTGAATTTTGAAAAATATTATTTTCATGTTTACAACA
1 GTTTTCTATTTTAAAAACATCTTTTTTGTTAAATTCTGAAAAATATTATTTTCATGTTTACAACA
**** *
12324733 AAAATTGTGTTTTTATCTTAGAAATGTCATATTTACAACAAAAAAACTAT
66 AAAATCACATTTTTATCTTAAAAATGTCATATTTACAACAAAAAAACTAT
* * * * **
12324783 GTTTTTTATTTTAAAAACTTTTTTTTTGTTAAATTCT-AACAAATAAATTTTTTTCATGTTTTTA
1 GTTTTCTATTTTAAAAACATCTTTTTTGTTAAATTCTGAA-AAAT--ATTATTTTCATGTTTACA
*
12324847 ACAAAAATCACATTTTTATTTTAAAAATGTCAT
63 ACAAAAATCACATTTTTATCTTAAAAATGTCAT
12324880 CTTTGTTAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
114 2 0.03
115 35 0.44
117 42 0.53
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (115 bp):
GTTTTCTATTTTAAAAACATCTTTTTTGTTAAATTCTGAAAAATATTATTTTCATGTTTACAACA
AAAATCACATTTTTATCTTAAAAATGTCATATTTACAACAAAAAAACTAT
Found at i:12341843 original size:24 final size:21
Alignment explanation
Indices: 12341811--12341855 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 21
12341801 TTTTACATGT
12341811 CATGGTTTGCACTTAGATTTTTTG
1 CATGGTTTG-A-TTAG-TTTTTTG
*
12341835 CATGTTTTGATTAGTTTTTTG
1 CATGGTTTGATTAGTTTTTTG
12341856 GGATAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 1 0.05
24 8 0.40
ACGTcount: A:0.16, C:0.09, G:0.20, T:0.56
Consensus pattern (21 bp):
CATGGTTTGATTAGTTTTTTG
Found at i:12344920 original size:134 final size:134
Alignment explanation
Indices: 12344690--12345161 Score: 579
Period size: 134 Copynumber: 3.5 Consensus size: 134
12344680 AGCAGATTTC
* * * * *
12344690 TATCTTTGAAATGCCACTAAATTAGTTGCTTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCAT
1 TATCTTTGAGACGCCACTAATTTAGTGGCGTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCAT
* * * *
12344755 TTGTAACTGAAAACGTCGTTACTTTAGAGGTGTTTGTATCTAAAAATGCCTCTATATTATCGACG
66 TTGTAACTGAAAACATCGCTACTTTAGAGGTGTTTGTATCTGAAAATGCCTCTATATTAACGACG
12344820 TTTG
131 TTTG
* * * * *
12344824 TATCTTTGAGACGCCATTAATTTAGTGGTGTTTTTATGAGAAAAAAGCCGTTGCTTTGGTGGCGT
1 TATCTTTGAGACGCCACTAATTTAGTGGCGTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCAT
* * * * ** * *
12344889 TTGTAACTGAAAATC-TCACTATTTTAAAGGTGTTTGTATTTGAAAACACCTCTATATTAGCGGC
66 TTGTAACTGAAAA-CATCGCTACTTTAGAGGTGTTTGTATCTGAAAATGCCTCTATATTAACGAC
12344953 GTTTG
130 GTTTG
* * * *
12344958 TATCTTTGAGACG-CAGCTAATTTAGTGACGTTTTTATGAGAAAAATGGCATTGCTTTGGTAGCA
1 TATCTTTGAGACGCCA-CTAATTTAGTGGCGTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCA
** ** * *
12345022 TTTGTAACTGAAAACATCGCTACTTTAGAGACGTTTGTATCTGAAAATGATTCAATATTAACGAT
65 TTTGTAACTGAAAACATCGCTACTTTAGAGGTGTTTGTATCTGAAAATGCCTCTATATTAACGAC
12345087 GTTTG
130 GTTTG
* * * **
12345092 TATCTTTGAGACACCCCTAATTTAGTGGCATTTTTATGAGAAAAACGTTATTGCTTTGGTGGCAT
1 TATCTTTGAGACGCCACTAATTTAGTGGCGTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCAT
12345157 TTGTA
66 TTGTA
12345162 TAAAAAACAC
Statistics
Matches: 284, Mismatches: 50, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
133 3 0.01
134 279 0.98
135 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (134 bp):
TATCTTTGAGACGCCACTAATTTAGTGGCGTTTTTATGAGAAAAACGCCATTGCTTTGGTGGCAT
TTGTAACTGAAAACATCGCTACTTTAGAGGTGTTTGTATCTGAAAATGCCTCTATATTAACGACG
TTTG
Found at i:12346787 original size:140 final size:140
Alignment explanation
Indices: 12346590--12346851 Score: 325
Period size: 140 Copynumber: 1.9 Consensus size: 140
12346580 CAAAAATAGT
12346590 CCTAAATAGACATAAACAACAACTTTTTCTCTCATATCAACCGTAGAAACCAAGTTCAATCAA-T
1 CCTAAATAGACATAAACAACAACTTTTTCTCTCATATCAACCGTAGAAACCAAGTTCAA--AACT
** * * * * *
12346654 -TGGATAAGTTTAATATCAAGTATTGAAGCTATCCAAATTGTTAAAATACAACAATAACAACAAA
64 ATCAATAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAATAAAACAATAACAACAAA
12346718 TTTGTATTTTCA
129 TTTGTATTTTCA
* * * * * *
12346730 CCTAAATATACGTAAACAATAACTTTTTCAT-TCATATCATCCGT-GTCAACTAAGTTCAAAACT
1 CCTAAATAGACATAAACAACAACTTTTTC-TCTCATATCAACCGTAG-AAACCAAGTTCAAAACT
* *
12346793 ATCAATAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAATAAAATAATAAC
64 ATCAATAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAATAAAACAATAAC
12346852 TATTAATTTC
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 2 0.02
139 2 0.02
140 98 0.95
141 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (140 bp):
CCTAAATAGACATAAACAACAACTTTTTCTCTCATATCAACCGTAGAAACCAAGTTCAAAACTAT
CAATAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAATAAAACAATAACAACAAATT
TGTATTTTCA
Found at i:12351974 original size:18 final size:20
Alignment explanation
Indices: 12351931--12351974 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
12351921 AATTAAGAAA
*
12351931 ACTTTTCACTTCATCTCTGT
1 ACTTTTCACTTAATCTCTGT
*
12351951 ACTTTTTACTTAATCT-TG-
1 ACTTTTCACTTAATCTCTGT
12351969 ACTTTT
1 ACTTTT
12351975 GCATCCAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 14 0.64
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (20 bp):
ACTTTTCACTTAATCTCTGT
Found at i:12352594 original size:3 final size:3
Alignment explanation
Indices: 12352577--12352687 Score: 105
Period size: 3 Copynumber: 39.7 Consensus size: 3
12352567 TGAATAAAGT
*
12352577 TTA TTA -TA TTA -TA TTA TTA -TA TTA -TG TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
12352619 GTC TGTA -TG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
12352664 TTA -TA TTA CTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12352688 GTTGTTGTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
2 16 0.18
3 73 0.81
4 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:12353426 original size:14 final size:14
Alignment explanation
Indices: 12353405--12353504 Score: 64
Period size: 14 Copynumber: 7.3 Consensus size: 14
12353395 TCTTTTACTA
12353405 TTTT-TTTTATTTT
1 TTTTATTTTATTTT
12353418 TTTTATTTTATTTT
1 TTTTATTTTATTTT
* * *
12353432 TTATAGTTTGA-ATT
1 TTTTA-TTTTATTTT
*
12353446 TTTTA-TTTATTAT
1 TTTTATTTTATTTT
* *
12353459 TTTAATTTTA-GTT
1 TTTTATTTTATTTT
**
12353472 TTTTATTTTACTAAT
1 TTTTATTTTA-TTTT
* *
12353487 TTTTATTATCTTTT
1 TTTTATTTTATTTT
12353501 TTTT
1 TTTT
12353505 TACTAAGTAA
Statistics
Matches: 64, Mismatches: 17, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
12 3 0.05
13 19 0.30
14 29 0.45
15 13 0.20
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTATTTTATTTT
Found at i:12353477 original size:19 final size:18
Alignment explanation
Indices: 12353404--12353481 Score: 57
Period size: 18 Copynumber: 4.0 Consensus size: 18
12353394 TTCTTTTACT
* * *
12353404 ATTTTTTTTATTTTTTTT
1 ATTTTATTTATTATTTTA
*
12353422 ATTTTATTTTTTATAGTTTGA
1 ATTTTATTTATTAT--TTT-A
12353443 ATTTTTTATTTATTATTTTA
1 A--TTTTATTTATTATTTTA
*
12353463 ATTTTAGTTTTTTATTTTA
1 ATTTTA-TTTATTATTTTA
12353482 CTAATTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 16 0.33
19 11 0.23
20 5 0.10
21 4 0.08
23 12 0.25
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
ATTTTATTTATTATTTTA
Found at i:12353490 original size:41 final size:40
Alignment explanation
Indices: 12353391--12353493 Score: 106
Period size: 41 Copynumber: 2.6 Consensus size: 40
12353381 CGATCACAAG
* * *
12353391 TTTTTCTTTTACT-ATTTTT-TTTATTTTTTTTATTTTAT
1 TTTTTATTTTACTAATTTTTATTTATTATTTTAATTTTAT
*
12353429 TTTTTATAGTTTGA--ATTTTTTATTTATTATTTTAATTTTAGT
1 TTTTTAT--TTT-ACTAATTTTTATTTATTATTTTAATTTTA-T
12353471 TTTTTATTTTACTAATTTTTATT
1 TTTTTATTTTACTAATTTTTATT
12353494 ATCTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
38 6 0.12
39 1 0.02
40 11 0.21
41 26 0.50
42 8 0.15
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (40 bp):
TTTTTATTTTACTAATTTTTATTTATTATTTTAATTTTAT
Found at i:12353518 original size:26 final size:26
Alignment explanation
Indices: 12353471--12353521 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12353461 TAATTTTAGT
**
12353471 TTTTTATTTTACTAATTTTTATTATC
1 TTTTTATTTTACTAATAATTATTATC
12353497 TTTTT-TTTTACTAAGTAATTATTAT
1 TTTTTATTTTACTAA-TAATTATTAT
12353522 TTGTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTATTTTACTAATAATTATTATC
Found at i:12358343 original size:17 final size:17
Alignment explanation
Indices: 12358321--12358353 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12358311 TAATGAATTG
12358321 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
12358338 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
12358354 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:12360946 original size:55 final size:55
Alignment explanation
Indices: 12360842--12361145 Score: 141
Period size: 55 Copynumber: 5.5 Consensus size: 55
12360832 CTTGATCTTA
* * **
12360842 GCTCAGTCCAGATCATTGTCCTGACTTGTGCCTTAATCCCAGTTGTTCAAACTTG
1 GCTCAATCCAGATCATTGTCCTGACTTGTGACTTAATCCCAGTCATTCAAACTTG
* * * * * *
12360897 GCTCAATCCAGGTCATTTTCTTGACTTGTGACTTAATCTC-GATCATTCAATCATG
1 GCTCAATCCAGATCATTGTCCTGACTTGTGACTTAATCCCAG-TCATTCAAACTTG
* * * * * * * * * * *
12360952 ACTTAGTCTAGATCATTTTCCTTACTTGTG-GTTCAATCCTAATCATTCCACCTTG
1 GCTCAATCCAGATCATTGTCCTGACTTGTGACTT-AATCCCAGTCATTCAAACTTG
* * * * * * * * *
12361007 GCTCAATCCAAATTATTTTTCTGACTTGTG-GTTCCATCTCAGTTATTCAATCTTG
1 GCTCAATCCAGATCATTGTCCTGACTTGTGACTT-AATCCCAGTCATTCAAACTTG
* * * * * * * * ** *
12361062 GCTCAATACAAATCATT-TTCTTACTTAT-AGCTCAATCCCAATCGTTTGATCTTG
1 GCTCAATCCAGATCATTGTCCTGACTTGTGA-CTTAATCCCAGTCATTCAAACTTG
* * *
12361116 GCTCAGTCCAGATCGTTTTCCTGACTTGTG
1 GCTCAATCCAGATCATTGTCCTGACTTGTG
12361146 GTTTCGTCTT
Statistics
Matches: 183, Mismatches: 59, Indels: 13
0.72 0.23 0.05
Matches are distributed among these distances:
54 39 0.21
55 144 0.79
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (55 bp):
GCTCAATCCAGATCATTGTCCTGACTTGTGACTTAATCCCAGTCATTCAAACTTG
Found at i:12361503 original size:3 final size:3
Alignment explanation
Indices: 12361489--12361704 Score: 144
Period size: 3 Copynumber: 74.3 Consensus size: 3
12361479 TTATTTTTGC
* * * * * * *
12361489 TAT TAG TAT TAT TAT TATT TGT TAT CAT TTT TAC TAG AAT TA- TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
12361534 TA- TAT TAT TAT TA- TAT TA- TAG TCT GTA- TGT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * *
12361575 TGT TAT TAT TAT TAT TA- TAT TAC TA- TAT TAT TAT TA- TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
12361620 TAT TGT TGT TGT TGT TAT TGT TAT TAT AAT TAT TAT AAT TAG TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
12361668 TAT TAT TAT TAT TCT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12361705 TATTTTCTTT
Statistics
Matches: 165, Mismatches: 37, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
2 17 0.10
3 145 0.88
4 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:12361537 original size:5 final size:5
Alignment explanation
Indices: 12361527--12361616 Score: 60
Period size: 5 Copynumber: 17.0 Consensus size: 5
12361517 TTTTACTAGA
*
12361527 ATTAT ATTAT ATTATT ATTAT ATTAT AGTCTGT ATGT-T ATTAT ATTATT
1 ATTAT ATTAT ATTA-T ATTAT ATTAT A-T-TAT AT-TAT ATTAT ATTA-T
* *
12361576 GTTATT ATTATT ATTAT A-T-T ACTAT ATTATT ATTAT ATTAT
1 ATTA-T ATTA-T ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT
12361617 TGTTATTGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
3 2 0.03
4 3 0.04
5 36 0.50
6 28 0.39
7 3 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:12362491 original size:7 final size:7
Alignment explanation
Indices: 12362475--12362563 Score: 58
Period size: 7 Copynumber: 12.3 Consensus size: 7
12362465 CTCTTTTTCA
12362475 TTTTA-T
1 TTTTATT
12362481 TTTTATT
1 TTTTATT
12362488 TTTTGATT
1 TTTT-ATT
*
12362496 TTAT-TT
1 TTTTATT
12362502 TTTTATT
1 TTTTATT
*
12362509 AGTTTTATA
1 --TTTTATT
* **
12362518 GTTTAAA
1 TTTTATT
12362525 TTTTATT
1 TTTTATT
12362532 TATTTATT
1 T-TTTATT
12362540 ATTTTA-T
1 -TTTTATT
12362547 TTTTAGTT
1 TTTTA-TT
12362555 TTTTATT
1 TTTTATT
12362562 TT
1 TT
12362564 ACTAACTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
6 15 0.23
7 22 0.33
8 22 0.33
9 7 0.11
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTTATT
Found at i:12362559 original size:30 final size:30
Alignment explanation
Indices: 12362481--12362562 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
12362471 TTCATTTTAT
* *
12362481 TTTTATTTTTTGATTTTATTTTTTTATTAG
1 TTTTATTTTTAGATTTTATTTATTTATTAG
* *
12362511 TTTTATAGTTTAAATTTTATTTATTTATTA-
1 TTTTAT-TTTTAGATTTTATTTATTTATTAG
*
12362541 TTTTATTTTTAGTTTTTTATTT
1 TTTTATTTTTAG-ATTTTATTT
12362563 TACTAACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 4 0.09
30 20 0.47
31 19 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (30 bp):
TTTTATTTTTAGATTTTATTTATTTATTAG
Found at i:12364302 original size:19 final size:20
Alignment explanation
Indices: 12364264--12364307 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12364254 ATAAGGGATA
*
12364264 CTATAATTAACAATAAATAT
1 CTATAATTAACAACAAATAT
12364284 CTATAATTAA-AACAAATAT
1 CTATAATTAACAACAAATAT
*
12364303 ATATA
1 CTATA
12364308 TGCATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (20 bp):
CTATAATTAACAACAAATAT
Found at i:12364485 original size:17 final size:18
Alignment explanation
Indices: 12364465--12364499 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12364455 AAGATACCAT
*
12364465 TTTATTTTTATT-TTTTA
1 TTTAATTTTATTATTTTA
12364482 TTTAATTTTATTATTTTA
1 TTTAATTTTATTATTTTA
12364500 AAATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTAATTTTATTATTTTA
Found at i:12364722 original size:19 final size:19
Alignment explanation
Indices: 12364699--12364751 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
12364689 GAGTTTTGTT
*
12364699 TAAGGTTTAGGGTTTCA-T
1 TAAGGTTTAGGGTTTCACC
*
12364717 TAAAGGTTTTA-GGTTCCACC
1 T-AAGG-TTTAGGGTTTCACC
12364737 TAAGGTTTAGGGTTT
1 TAAGGTTTAGGGTTT
12364752 TATATAAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (19 bp):
TAAGGTTTAGGGTTTCACC
Found at i:12368811 original size:21 final size:21
Alignment explanation
Indices: 12368787--12368833 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
12368777 ACCATTAATT
* *
12368787 TTAATTTTA-TTATTACAATAC
1 TTAATTTTACTGA-TACAATAA
*
12368808 TTAAATTTACTGATACAATAA
1 TTAATTTTACTGATACAATAA
12368829 TTAAT
1 TTAAT
12368834 CTCACTATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAATTTTACTGATACAATAA
Found at i:12370971 original size:20 final size:20
Alignment explanation
Indices: 12370933--12370984 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
12370923 TTTGATCAAT
*
12370933 AAAATTAAAATTAACCAAAC
1 AAAATCAAAATTAACCAAAC
*
12370953 AAAATCAAAATTATACAAAAC
1 AAAATCAAAATTA-ACCAAAC
**
12370974 TTAATCAAAAT
1 AAAATCAAAAT
12370985 GAATAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATCAAAATTAACCAAAC
Found at i:12371000 original size:21 final size:21
Alignment explanation
Indices: 12370949--12371002 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
12370939 AAAATTAACC
* *
12370949 AAACAAAATCAAAATTATACA
1 AAACTAAATCAAAATGATACA
* *
12370970 AAACTTAATCAAAATGA-ATA
1 AAACTAAATCAAAATGATACA
12370990 AAACTCAAATCAA
1 AAACT-AAATCAA
12371003 TTCTTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.20
Consensus pattern (21 bp):
AAACTAAATCAAAATGATACA
Found at i:12371622 original size:14 final size:12
Alignment explanation
Indices: 12371587--12371627 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12371577 AAGGGAGTTG
12371587 AAAAGAAAAAAA
1 AAAAGAAAAAAA
*
12371599 AAAGAGAAAAAGA
1 AAA-AGAAAAAAA
*
12371612 AATAGAAAAAAA
1 AAAAGAAAAAAA
12371624 AAAA
1 AAAA
12371628 AACAAGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:12371627 original size:31 final size:31
Alignment explanation
Indices: 12371560--12371640 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
12371550 AGGAGAAGGC
* * *
12371560 AAAAAAAAAAAGAGAAAAAGGGAGTTGAAAA
1 AAAAAAAAAAAGAGAAAAAGGAAATAGAAAA
*
12371591 GAAAAAAAAAAGAGAAAAA-GAAATAGAAAA
1 AAAAAAAAAAAGAGAAAAAGGAAATAGAAAA
12371621 AAAAAAAAACAAGAAGAAAA
1 AAAAAAAAA-AAG-AGAAAA
12371641 CGAATGACGG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 16 0.37
31 21 0.49
32 6 0.14
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (31 bp):
AAAAAAAAAAAGAGAAAAAGGAAATAGAAAA
Found at i:12371635 original size:29 final size:29
Alignment explanation
Indices: 12371560--12371635 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
12371550 AGGAGAAGGC
* * * *
12371560 AAAAAAAAAAAGAGAAAAAGGGAGTTGAA
1 AAAAAAAAAAAAAGAAAAAGGAAATAGAA
12371589 AAGAAAAAAAAAAGAGAAAAA-GAAATAGAA
1 AA-AAAAAAAAAA-AGAAAAAGGAAATAGAA
12371619 AAAAAAAAAAACAAGAA
1 AAAAAAAAAAA-AAGAA
12371636 GAAAACGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 15 0.38
30 18 0.45
31 7 0.17
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (29 bp):
AAAAAAAAAAAAAGAAAAAGGAAATAGAA
Found at i:12377194 original size:19 final size:20
Alignment explanation
Indices: 12377166--12377215 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
12377156 AGAGTGTTCG
*
12377166 TAATTCAATTAAAATCAAAT
1 TAATTCAATTAAAATAAAAT
12377186 TAA-TCAATT-AAATAAAAT
1 TAATTCAATTAAAATAAAAT
12377204 TAATTCAATTAA
1 TAATTCAATTAA
12377216 TTAGTCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 11 0.41
19 12 0.44
20 4 0.15
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATTCAATTAAAATAAAAT
Found at i:12377595 original size:25 final size:24
Alignment explanation
Indices: 12377558--12377604 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
12377548 ATTAATCTTT
*
12377558 AAAATTAAATAATTTAATTAATAA
1 AAAAATAAATAATTTAATTAATAA
*
12377582 AAAAATAAATTAATTTTATTAAT
1 AAAAATAAA-TAATTTAATTAAT
12377605 TTAATTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAATAAATAATTTAATTAATAA
Found at i:12392186 original size:25 final size:25
Alignment explanation
Indices: 12392152--12392201 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
12392142 TTCCAATAAC
*
12392152 ACTAGAGTAAGGAACTTTTACTATT
1 ACTAGAGTAAGAAACTTTTACTATT
12392177 ACTAGAGTAAGAAACTTTTACTATT
1 ACTAGAGTAAGAAACTTTTACTATT
12392202 TGTTCCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (25 bp):
ACTAGAGTAAGAAACTTTTACTATT
Found at i:12397137 original size:24 final size:24
Alignment explanation
Indices: 12397107--12397168 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
12397097 AATATCATTA
12397107 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATTATATCATGCAAT
* *
12397130 AACATATAATATCATATCATGTAAT
1 AA-ATATAATATTATATCATGCAAT
*
12397155 AAATATAAAATTAT
1 AAATATAATATTAT
12397169 GCAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.61
25 11 0.33
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.35
Consensus pattern (24 bp):
AAATATAATATTATATCATGCAAT
Found at i:12397852 original size:145 final size:143
Alignment explanation
Indices: 12397491--12397890 Score: 444
Period size: 145 Copynumber: 2.8 Consensus size: 143
12397481 TGGGAAAGTC
* * * * * *
12397491 AAAATTACCAAAATACCTTTATAAAGGTATTTTTGTAATTTAATCTTCCCAAGCTTGGATTTTTG
1 AAAATTA-CAAAATACCCTTATAAAGGTATTTTTGTAATTTGACCTTCCTAAGCTT-AAATTTTG
* * * * * *
12397556 TGAAATTTTTCAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGCAG
64 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCACAACAG
* *
12397621 TACTTTGAAAAGTGT
129 TACCTCGAAAAGTGT
* * * **
12397636 AAAATTACTAAAATACTCTTATAATA-GTATTTTTGTAATTTGACATT-CTCGAGCACAGAATTT
1 AAAATTAC-AAAATACCCTTATAA-AGGTATTTTTGTAATTTGACCTTCCT-AAGCTTA-AATTT
* * *
12397699 TGTGAAACTTTTCATATCTTAATTTTATAATATTTCATAATTTTTGATGTATTTGAAATCACAAC
62 TGTGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCACAAC
*
12397764 AGTACCTCGAGAAGTGT
127 AGTACCTCGAAAAGTGT
* *
12397781 AAAATTATCAAAATACCCTTATAAAGGTATTTTCGTAATTTGACCTTCCTAAGCTTAAATTTTCA
1 AAAATTA-CAAAATACCCTTATAAAGGTATTTTTGTAATTTGACCTTCCTAAGCTTAAATTTT-G
** * * *
12397846 CAAAACTTTTCAAATCTTAATTTCACAACATTTCATGATTTTTGA
64 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGA
12397891 CATTTTAAAA
Statistics
Matches: 211, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
144 9 0.04
145 198 0.94
146 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (143 bp):
AAAATTACAAAATACCCTTATAAAGGTATTTTTGTAATTTGACCTTCCTAAGCTTAAATTTTGTG
AAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCACAACAGTA
CCTCGAAAAGTGT
Found at i:12401440 original size:53 final size:53
Alignment explanation
Indices: 12401382--12401488 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
12401372 ATATATTAAT
* * * * *
12401382 AATCATACAATCATACAAATAAATAAAT-TAATAATGATGCAAATAATAATATA
1 AATCATACAAACAAACAAACAAATAAATAT-ATAATAATACAAATAATAATATA
* * *
12401435 AATCATGCAAACAAACATACAATTAAATATATAATAATACAAATAATAATATA
1 AATCATACAAACAAACAAACAAATAAATATATAATAATACAAATAATAATATA
12401488 A
1 A
12401489 GCATGCAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
53 44 0.98
54 1 0.02
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (53 bp):
AATCATACAAACAAACAAACAAATAAATATATAATAATACAAATAATAATATA
Found at i:12401476 original size:20 final size:20
Alignment explanation
Indices: 12401451--12401513 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
12401441 GCAAACAAAC
12401451 ATACAATTAAATATATAATA
1 ATACAATTAAATATATAATA
* **
12401471 ATACAAAT-AATAATATAAGC
1 ATACAATTAAAT-ATATAATA
*
12401491 ATGCAATTAAATATATAATA
1 ATACAATTAAATATATAATA
12401511 ATA
1 ATA
12401514 ATCATGTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (20 bp):
ATACAATTAAATATATAATA
Found at i:12401534 original size:26 final size:25
Alignment explanation
Indices: 12401475--12401538 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
12401465 ATAATAATAC
12401475 AAAT-AATAATATAAGCATGCAATT
1 AAATAAATAATATAAGCATGCAATT
* * *
12401499 AAATATATAATAATAATCATGTAATT
1 AAATAAATAAT-ATAAGCATGCAATT
*
12401525 ACATAAATAA-ATAA
1 AAATAAATAATATAA
12401539 ATTGATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 8 0.24
25 5 0.15
26 20 0.61
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (25 bp):
AAATAAATAATATAAGCATGCAATT
Found at i:12401558 original size:20 final size:20
Alignment explanation
Indices: 12401533--12401578 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
12401523 TTACATAAAT
* *
12401533 AAATAAATTGATAATTATGC
1 AAATAAATTAATAATAATGC
12401553 AAATAAATTAATAATAATGC
1 AAATAAATTAATAATAATGC
12401573 AAATAA
1 AAATAA
12401579 TAATGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (20 bp):
AAATAAATTAATAATAATGC
Found at i:12401671 original size:32 final size:32
Alignment explanation
Indices: 12401635--12401696 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
12401625 CATGCAAAAT
*
12401635 ATGCACTTAAATATATAATCATACAAATAAAC
1 ATGCAATTAAATATATAATCATACAAATAAAC
*
12401667 ATGCAATTAAATATATAATCATGCAAATAA
1 ATGCAATTAAATATATAATCATACAAATAA
12401697 TAACATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (32 bp):
ATGCAATTAAATATATAATCATACAAATAAAC
Found at i:12401704 original size:20 final size:19
Alignment explanation
Indices: 12401681--12401737 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 19
12401671 AATTAAATAT
12401681 ATAATCATGCAAATAATAAC
1 ATAATCATGCAAAT-ATAAC
*
12401701 ATAAAAATCATGCAAATATAAT
1 AT---AATCATGCAAATATAAC
*
12401723 ATTAGTCATGCAAAT
1 A-TAATCATGCAAAT
12401738 TCATGCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 13 0.42
22 5 0.16
23 13 0.42
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (19 bp):
ATAATCATGCAAATATAAC
Found at i:12402365 original size:12 final size:12
Alignment explanation
Indices: 12402348--12402377 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12402338 ACTGAAAAAA
12402348 CAAAAATTAAAC
1 CAAAAATTAAAC
12402360 CAAAAATTAAAC
1 CAAAAATTAAAC
*
12402372 TAAAAA
1 CAAAAA
12402378 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:12402801 original size:69 final size:69
Alignment explanation
Indices: 12402671--12402806 Score: 164
Period size: 69 Copynumber: 2.0 Consensus size: 69
12402661 AAATACTCTC
* * * **
12402671 CCACAACTGAGGCTTTGCAACTTTTGAAAAATAAAATACCCCCCCACAACTAAGGTTTTAGAACT
1 CCACAACTCAAGCTTTGCAACTTTGGAAAAATAAAATACCCCCCCACAACTAAGGCATTAGAACT
12402736 TTTG
66 TTTG
* * * * ** *
12402740 CCACAACTCAAGCTTTGTAACTTTGGAAAAATAAAATGCTCCCCTATGACTGAGGCATTAGAACT
1 CCACAACTCAAGCTTTGCAACTTTGGAAAAATAAAATACCCCCCCACAACTAAGGCATTAGAACT
12402805 TT
66 TT
12402807 AAGAAAATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (69 bp):
CCACAACTCAAGCTTTGCAACTTTGGAAAAATAAAATACCCCCCCACAACTAAGGCATTAGAACT
TTTG
Found at i:12402819 original size:43 final size:41
Alignment explanation
Indices: 12402766--12403077 Score: 183
Period size: 43 Copynumber: 7.3 Consensus size: 41
12402756 GTAACTTTGG
* *
12402766 AAAAATAAAATGCTCCCCTATGACTGAGGCATTAGAACTTTA
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACTTTA
* * * *
12402808 AGAAAATAAAATGCTCCCCCACAGCTAAGGCTTTGGAACTTTGA
1 A-AAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACTTT-A
* ** * *
12402852 AAAAGTAAAATGCTTTCCTACAATTGAGGCTTTAGAACTTTG
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACTTTA
** * * * *
12402894 AAAAATAAAATGCTCATCAACAACTTAGGCTTTGGAACTTTGG
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACTTT-A
* * * * * * **
12402937 AAAAATAAAATGCTCCCCCATAATTAAGACATTGGAACTATGG
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACT-TTA
* * * * * *
12402980 AAAAATAAAGTGCTCCCATACAACTGAGGCATTGGAATTTTGG
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAACTTT-A
* * * * *
12403023 AAAAGTAAAATACTCCCCTACAACTAAGGCTTTGGAACTTTTG
1 AAAAATAAAATGCTCCCCTA-AACTGAGGCTTTAGAAC-TTTA
12403066 AAAAATAAAATG
1 AAAAATAAAATG
12403078 AGATCATTCT
Statistics
Matches: 213, Mismatches: 51, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
42 35 0.16
43 172 0.81
44 6 0.03
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (41 bp):
AAAAATAAAATGCTCCCCTAAACTGAGGCTTTAGAACTTTA
Found at i:12402887 original size:86 final size:85
Alignment explanation
Indices: 12402742--12403077 Score: 318
Period size: 86 Copynumber: 3.9 Consensus size: 85
12402732 AACTTTTGCC
* **
12402742 ACAACTCAA-GCTTTGTAACTTTGGAAAAATAAAATGCTCCCCTATGACTGAGGCATTAGAACTT
1 ACAACT-AAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCTACAACTGAGGCATTAGAACTT
* *
12402806 TAAGAAAATAAAATGCTCCCCC
65 TAA-AAAATAAAATGCTCACCA
* ** * *
12402828 ACAGCTAAGGCTTTGGAACTTT-GAAAAAGTAAAATGCTTTCCTACAATTGAGGCTTTAGAACTT
1 ACAACTAAGGCTTTGGAACTTTGGAAAAA-TAAAATGCTCCCCTACAACTGAGGCATTAGAACTT
* *
12402892 TGAAAAATAAAATGCTCATCA
65 TAAAAAATAAAATGCTCACCA
* * * * * * *
12402913 ACAACTTAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCCATAATTAAGACATTGGAACTAT
1 ACAACTAAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCTACAACTGAGGCATTAGAACT-T
** *
12402978 GGAAAAATAAAGTGCTC-CCA
65 TAAAAAATAAAATGCTCACCA
* * * * * * * *
12402998 TACAACTGAGGCATTGGAATTTTGGAAAAGTAAAATACTCCCCTACAACTAAGGCTTTGGAACTT
1 -ACAACTAAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCTACAACTGAGGCATTAGAAC-T
*
12403063 TTGAAAAATAAAATG
64 TTAAAAAATAAAATG
12403078 AGATCATTCT
Statistics
Matches: 207, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
85 71 0.34
86 135 0.65
87 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (85 bp):
ACAACTAAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCTACAACTGAGGCATTAGAACTTT
AAAAAATAAAATGCTCACCA
Found at i:12403045 original size:171 final size:172
Alignment explanation
Indices: 12402742--12403077 Score: 424
Period size: 171 Copynumber: 2.0 Consensus size: 172
12402732 AACTTTTGCC
* * * * * *
12402742 ACAACTCAAGCTTTGTAACTTTGGAAAAATAAAATGCTCCCCTATGACTGAGGCATTAGAACTTT
1 ACAACTCAAGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCCATAACTAAGACATTAGAACTTG
* * * * **
12402807 AAGAAAATAAAATGCTCCCCCACAGCTAAGGCTTTGGAACTTTGAAAAAGTAAAATGCTTTCCTA
66 AAGAAAATAAAATGCTCCCACACAACTAAGGCATTGGAACTTTGAAAAAGTAAAATACTCCCCTA
* *
12402872 CAATTGAGGCTTTAGAAC-TTTGAAAAATAAAATGCTCATCA
131 CAACTAAGGCTTTAGAACTTTTGAAAAATAAAATGCTCATCA
* * * *
12402913 ACAACTTAGGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCCATAATTAAGACATTGGAACTAT
1 ACAACTCAAGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCCATAACTAAGACATTAGAACT-T
* * * * * *
12402978 GGA-AAAATAAAGTGCTCCCATACAACTGAGGCATTGGAATTTTGGAAAAGTAAAATACTCCCCT
65 GAAGAAAATAAAATGCTCCCACACAACTAAGGCATTGGAACTTTGAAAAAGTAAAATACTCCCCT
*
12403042 ACAACTAAGGCTTTGGAACTTTTGAAAAATAAAATG
130 ACAACTAAGGCTTTAGAACTTTTGAAAAATAAAATG
12403078 AGATCATTCT
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
171 120 0.87
172 18 0.13
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (172 bp):
ACAACTCAAGCTTTGGAACTTTGGAAAAATAAAATGCTCCCCCATAACTAAGACATTAGAACTTG
AAGAAAATAAAATGCTCCCACACAACTAAGGCATTGGAACTTTGAAAAAGTAAAATACTCCCCTA
CAACTAAGGCTTTAGAACTTTTGAAAAATAAAATGCTCATCA
Found at i:12406570 original size:18 final size:18
Alignment explanation
Indices: 12406547--12406595 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
12406537 TATATAGAAA
12406547 ACAAACAAATAAGAAATC
1 ACAAACAAATAAGAAATC
12406565 ACAAACAAATAAGAAATC
1 ACAAACAAATAAGAAATC
12406583 ACAAACAAATAAG
1 ACAAACAAATAAG
12406596 TTAACTCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.67, C:0.16, G:0.06, T:0.10
Consensus pattern (18 bp):
ACAAACAAATAAGAAATC
Found at i:12407171 original size:13 final size:13
Alignment explanation
Indices: 12407153--12407215 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
12407143 AATCATACCA
12407153 AATATCATGCAAT
1 AATATCATGCAAT
*
12407166 AATATCATGC-CT
1 AATATCATGCAAT
*
12407178 AA-ATCATACTAA-
1 AATATCATGC-AAT
*
12407190 AATATTCATGCAAG
1 AATA-TCATGCAAT
*
12407204 AATGTCATGCAA
1 AATATCATGCAA
12407216 ATATATTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 6 0.15
12 5 0.12
13 21 0.52
14 8 0.20
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (13 bp):
AATATCATGCAAT
Found at i:12407212 original size:38 final size:36
Alignment explanation
Indices: 12407141--12407213 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 36
12407131 AAATATATTA
* *
12407141 TAAATCATACCAAATATCATGCAATAATATCATGCC
1 TAAATCATACAAAATATCATGCAAGAATATCATGCC
*
12407177 TAAATCATACTAAAATATTCATGCAAGAATGTCATGC
1 TAAATCATAC-AAAATA-TCATGCAAGAATATCATGC
12407214 AAATATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 10 0.31
37 5 0.16
38 17 0.53
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (36 bp):
TAAATCATACAAAATATCATGCAAGAATATCATGCC
Found at i:12407564 original size:41 final size:41
Alignment explanation
Indices: 12407517--12407621 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 41
12407507 ATGTAAATAG
* * *
12407517 ACATGCAAGTAAATATATAATTATACAATTAACAATGTAAA
1 ACATGCAAATAAATATATAATTATACAAATAACAATATAAA
* * *
12407558 ACATGCAATTAAATATATAATCATACAAATAATAATATAAA
1 ACATGCAAATAAATATATAATTATACAAATAACAATATAAA
* * *
12407599 TCATGCAAATAAACATACAATTA
1 ACATGCAAATAAATATATAATTA
12407622 AATATATAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (41 bp):
ACATGCAAATAAATATATAATTATACAAATAACAATATAAA
Found at i:12407602 original size:21 final size:22
Alignment explanation
Indices: 12407569--12407610 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
12407559 CATGCAATTA
12407569 AATATATAATCATACAAATAAT
1 AATATATAATCATACAAATAAT
*
12407591 AATATA-AATCATGCAAATAA
1 AATATATAATCATACAAATAA
12407611 ACATACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATATAATCATACAAATAAT
Found at i:12407807 original size:22 final size:22
Alignment explanation
Indices: 12407766--12407825 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
12407756 AAACCATGTA
*
12407766 AAAT-ATGCAATTA-AATATAT
1 AAATCATGCAAATATAATATAT
12407786 -AATCATGCAAATAATAATATAT
1 AAATCATGCAAAT-ATAATATAT
12407808 AAATCATGCAAATATAAT
1 AAATCATGCAAATATAAT
12407826 CTTAGTCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 3 0.09
20 7 0.20
21 1 0.03
22 12 0.34
23 12 0.34
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (22 bp):
AAATCATGCAAATATAATATAT
Found at i:12407821 original size:20 final size:19
Alignment explanation
Indices: 12407766--12407821 Score: 51
Period size: 23 Copynumber: 2.7 Consensus size: 19
12407756 AAACCATGTA
*
12407766 AAAT-ATGCAATTAAATAT
1 AAATCATGCAAATAAATAT
12407784 ATAATCATGCAAATAATAATATAT
1 A-AATCATGC--A-AATAA-ATAT
12407808 AAATCATGCAAATA
1 AAATCATGCAAATA
12407822 TAATCTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 8 0.26
21 1 0.03
22 1 0.03
23 12 0.39
24 5 0.16
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATCATGCAAATAAATAT
Found at i:12408477 original size:12 final size:12
Alignment explanation
Indices: 12408460--12408489 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12408450 CTAAAAAAAA
12408460 CAAAAATTAAAC
1 CAAAAATTAAAC
12408472 CAAAAATTAAAC
1 CAAAAATTAAAC
*
12408484 TAAAAA
1 CAAAAA
12408490 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:12409677 original size:51 final size:52
Alignment explanation
Indices: 12409587--12409730 Score: 188
Period size: 51 Copynumber: 2.8 Consensus size: 52
12409577 TAATTAAGAA
* *
12409587 ATTTTTTG-GATTTAATTCCAGAATCAATTGCAT-TAAAAATGATGTGGAGAG
1 ATTTTTTGAGATTTAATTTCAGAATCAATT-CATATTAAAATGATGTGGAGAG
* * *
12409638 A-TTTTTGAGATTTAATTTTAGAATTAATTCATATTAAAATGATGTTGAGAG
1 ATTTTTTGAGATTTAATTTCAGAATCAATTCATATTAAAATGATGTGGAGAG
**
12409689 ATTTTTTGA-ATTTAATTTCAGAATCAATTCGCATTAAAATGA
1 ATTTTTTGAGATTTAATTTCAGAATCAATTCATATTAAAATGA
12409731 AAATCAAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
50 9 0.11
51 65 0.80
52 7 0.09
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (52 bp):
ATTTTTTGAGATTTAATTTCAGAATCAATTCATATTAAAATGATGTGGAGAG
Found at i:12412101 original size:16 final size:17
Alignment explanation
Indices: 12412080--12412111 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12412070 AATTTGAGAT
12412080 TATTTTCTTT-TTTTCC
1 TATTTTCTTTATTTTCC
12412096 TATTTTCTTTATTTTC
1 TATTTTCTTTATTTTC
12412112 ATTACTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTCTTTATTTTCC
Found at i:12413743 original size:11 final size:11
Alignment explanation
Indices: 12413729--12413753 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12413719 AAAAATGATA
12413729 AAAAAAAAAAG
1 AAAAAAAAAAG
12413740 AAAAAAAAAAG
1 AAAAAAAAAAG
12413751 AAA
1 AAA
12413754 TGAAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:12414083 original size:14 final size:14
Alignment explanation
Indices: 12414066--12414095 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12414056 AAGGTGTGCA
12414066 AAAAACAAAAAAGC
1 AAAAACAAAAAAGC
12414080 AAAAACAAAAAAGC
1 AAAAACAAAAAAGC
12414094 AA
1 AA
12414096 GAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAAAGC
Found at i:12414952 original size:55 final size:54
Alignment explanation
Indices: 12414819--12415027 Score: 167
Period size: 55 Copynumber: 3.8 Consensus size: 54
12414809 CACTCATCCA
* * ** *
12414819 ATCTTGGCTCAATCCAAATTATTTTTCAAACTTGTGGTTTCA-TCTCAATCA-TCTG
1 ATCTTGGCTCAATCCAGATCATTTTTCTGACTTGTGG-CTCAGTCTC-ATCATTC-G
* * * *
12414874 AT-TTGGCTTAGTCCATATCA-TTTTCTTGACTTGTGGCTCAGTCTTAGTCATTCG
1 ATCTTGGCTCAATCCAGATCATTTTTC-TGACTTGTGGCTCAGTCTCA-TCATTCG
* ** * * *
12414928 ATCTTGGCTCAATCCAGATTATTTTTCTGACTTGTGATTTC-GTTCTGATTATCCG
1 ATCTTGGCTCAATCCAGATCATTTTTCTGACTTGTG-GCTCAG-TCTCATCATTCG
* *
12414983 ATCTTGGCTCAGTCCAGATCATTTTTTTGACTTGTGGCTCAGTCT
1 ATCTTGGCTCAATCCAGATCATTTTTCTGACTTGTGGCTCAGTCT
12415028 AGATCTTTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
53 9 0.07
54 36 0.29
55 67 0.54
56 11 0.09
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (54 bp):
ATCTTGGCTCAATCCAGATCATTTTTCTGACTTGTGGCTCAGTCTCATCATTCG
Found at i:12415021 original size:30 final size:29
Alignment explanation
Indices: 12414987--12415044 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
12414977 TATCCGATCT
12414987 TGGCTCAGTCCAGATCATTTTTTTGACTTG
1 TGGCTCAGTCCAGATC-TTTTTTTGACTTG
*
12415017 TGGCTCAGTCTAGATCTTTTTTTGACTT
1 TGGCTCAGTCCAGATCTTTTTTTGACTT
12415045 ATGATTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (29 bp):
TGGCTCAGTCCAGATCTTTTTTTGACTTG
Found at i:12415021 original size:110 final size:109
Alignment explanation
Indices: 12414819--12415027 Score: 294
Period size: 109 Copynumber: 1.9 Consensus size: 109
12414809 CACTCATCCA
* * *
12414819 ATCTTGGCTCAATCCAAATTATTTTTCAAACTTGTGGTTTCATCTCAATCATCTGATTTGGCTTA
1 ATCTTGGCTCAATCCAAATTATTTTTCAAACTTGTGATTTCATCTCAATCATCCGATTTGGCTCA
*
12414884 GTCCATATCATTTTCTTGACTTGTGGCTCAGTCTTAGTCATTCG
66 GTCCAGATCATTTTCTTGACTTGTGGCTCAGTCTTAGTCATTCG
* ** * * *
12414928 ATCTTGGCTCAATCCAGATTATTTTTCTGACTTGTGATTTCGT-TCTGATTATCCGATCTTGGCT
1 ATCTTGGCTCAATCCAAATTATTTTTCAAACTTGTGATTTCATCTC-AATCATCCGAT-TTGGCT
*
12414992 CAGTCCAGATCATTTTTTTGACTTGTGGCTCAGTCT
64 CAGTCCAGATCATTTTCTTGACTTGTGGCTCAGTCT
12415028 AGATCTTTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 2 0.02
109 46 0.53
110 39 0.45
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (109 bp):
ATCTTGGCTCAATCCAAATTATTTTTCAAACTTGTGATTTCATCTCAATCATCCGATTTGGCTCA
GTCCAGATCATTTTCTTGACTTGTGGCTCAGTCTTAGTCATTCG
Found at i:12415050 original size:84 final size:83
Alignment explanation
Indices: 12414949--12415109 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 83
12414939 ATCCAGATTA
* * * * * * *
12414949 TTTTTCTGACTTGTGATTTCGTTCTGATTATCCGATCTTGGCTCAGTCCAGATCATTTTTTTGAC
1 TTTTTCTGACTTATGATTCCATCCTGATCATCCAATCTTGACTCAGTCCAGATCA-TTTTTTGAC
*
12415014 TTGTGGCTCAGTCTAGATC
65 TTATGGCTCAGTCTAGATC
* *
12415033 TTTTTTTGACTTATGATTCCATCCTGATCATTCAATCTTGACTCAGTCCAGATCATTTTTTGACT
1 TTTTTCTGACTTATGATTCCATCCTGATCATCCAATCTTGACTCAGTCCAGATCATTTTTTGACT
*
12415098 TATGGTTCAGTC
66 TATGGCTCAGTC
12415110 CCGATCAACC
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 20 0.30
84 46 0.70
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (83 bp):
TTTTTCTGACTTATGATTCCATCCTGATCATCCAATCTTGACTCAGTCCAGATCATTTTTTGACT
TATGGCTCAGTCTAGATC
Found at i:12415086 original size:54 final size:54
Alignment explanation
Indices: 12415019--12415159 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
12415009 TTGACTTGTG
* **
12415019 GCTCAGTCTAGATCTTTTTTTGACTTATGATTCCA-TCCTGATCATTCAATCTT-
1 GCTCAGTCTAGATCTTTTTTTGACTTATGATT-CAGTCCCGATCAACCAATCTTA
* * * *
12415072 GACTCAGTCCAGATCATTTTTTGACTTATGGTTCAGTCCCGATCAACCGATCTTA
1 G-CTCAGTCTAGATCTTTTTTTGACTTATGATTCAGTCCCGATCAACCAATCTTA
*
12415127 GCTCAGTCTAGATCATTTTTTTGACTTGTGATT
1 GCTCAGTCTAGATC-TTTTTTTGACTTATGATT
12415160 TTGTCTTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.04
54 54 0.74
55 16 0.22
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (54 bp):
GCTCAGTCTAGATCTTTTTTTGACTTATGATTCAGTCCCGATCAACCAATCTTA
Found at i:12415108 original size:29 final size:29
Alignment explanation
Indices: 12414990--12415116 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 29
12414980 CCGATCTTGG
* *
12414990 CTCAGTCCAGATCATTTTTTTGACTTGTGG
1 CTCAGTCCAGATCA-TTTTTTGACTTATGA
* *
12415020 CTCAGTCTAGATCTTTTTTTGACTTATGA
1 CTCAGTCCAGATCATTTTTTGACTTATGA
* * ***
12415049 TTCCA-TCCTGATCATTCAAT--C-T-TGA
1 CT-CAGTCCAGATCATTTTTTGACTTATGA
*
12415074 CTCAGTCCAGATCATTTTTTGACTTATGG
1 CTCAGTCCAGATCATTTTTTGACTTATGA
* *
12415103 TTCAGTCCCGATCA
1 CTCAGTCCAGATCA
12415117 ACCGATCTTA
Statistics
Matches: 72, Mismatches: 19, Indels: 13
0.69 0.18 0.12
Matches are distributed among these distances:
24 2 0.03
25 15 0.21
26 1 0.01
27 2 0.03
28 1 0.01
29 37 0.51
30 14 0.19
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (29 bp):
CTCAGTCCAGATCATTTTTTGACTTATGA
Found at i:12415230 original size:55 final size:55
Alignment explanation
Indices: 12415168--12415484 Score: 182
Period size: 55 Copynumber: 5.8 Consensus size: 55
12415158 TTTTGTCTTG
* * *
12415168 GTCATCTGACCTTCACTCAGTCAAGATCATTTTCTTGACTTGT-GACTCAATCCCA
1 GTCATCTGATCTTAACTCAATCAAGATCATTTTCTTGACTTGTAGACTC-ATCCCA
* * ** * ** *
12415223 GTTATCTGATTTTGGCTCAATCTAGATCATTTTCTTGACTTGTAGTTTCATCTCA
1 GTCATCTGATCTTAACTCAATCAAGATCATTTTCTTGACTTGTAGACTCATCCCA
* * **
12415278 GTCATCCGATCTTAACTCAATCTAA-ATCATTTTCTTGACTTATAG-CTCAGTGTC-
1 GTCATCTGATCTTAACTCAATC-AAGATCATTTTCTTGACTTGTAGACTCA-TCCCA
* ** * * * *
12415332 GATCATCCGATCTTGGCTCAATCTAGATTATTTTCTTGACTTGT-GGCTCAATCCTA
1 G-TCATCTGATCTTAACTCAATCAAGATCATTTTCTTGACTTGTAGACTC-ATCCCA
* * * ** * ** * *
12415388 AT-ATCCGATCTTGACTCAATTTATATCATTTTCTAAATTTGT-GATTCAATCCCA
1 GTCATCTGATCTTAACTCAATCAAGATCATTTTCTTGACTTGTAGACTC-ATCCCA
* * * * *
12415442 GTCATTTGATCTCAACTTAGTCTAA-ATCATTTTTTTGACTTGT
1 GTCATCTGATCTTAACTCAATC-AAGATCATTTTCTTGACTTGT
12415485 GGTTCAATTT
Statistics
Matches: 201, Mismatches: 51, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
54 49 0.24
55 146 0.73
56 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (55 bp):
GTCATCTGATCTTAACTCAATCAAGATCATTTTCTTGACTTGTAGACTCATCCCA
Found at i:12415262 original size:110 final size:111
Alignment explanation
Indices: 12415084--12415376 Score: 310
Period size: 110 Copynumber: 2.7 Consensus size: 111
12415074 CTCAGTCCAG
* * * * * * *
12415084 ATCATTTT-TTGACTTATGGTTCAGTCCCGATCAACCGATCTTAGCTCAGTCTAGATCATTTTTT
1 ATCATTTTCTTGACTTATAGCTCAATCCCGATCATCCGATCTTGGCTCAATCTAGATCATTTTCT
** ** * * *
12415148 TGACTTGTGA-TTTTGTCTTGGTCATCTGACCTTCACTCAGTC-AA
66 TGACTTGTGAGTTTCATCTCAGTCATCCGACCTTAACTCAATCTAA
* * * *
12415192 GATCATTTTCTTGACTTGT-GACTCAATCCC-AGTTATCTGATTTTGGCTCAATCTAGATCATTT
1 -ATCATTTTCTTGACTTATAG-CTCAATCCCGA-TCATCCGATCTTGGCTCAATCTAGATCATTT
*
12415255 TCTTGACTTGT-AGTTTCATCTCAGTCATCCGATCTTAACTCAATCTAA
63 TCTTGACTTGTGAGTTTCATCTCAGTCATCCGACCTTAACTCAATCTAA
* ** *
12415303 ATCATTTTCTTGACTTATAGCTCAGTGTCGATCATCCGATCTTGGCTCAATCTAGATTATTTTCT
1 ATCATTTTCTTGACTTATAGCTCAATCCCGATCATCCGATCTTGGCTCAATCTAGATCATTTTCT
12415368 TGACTTGTG
66 TGACTTGTG
12415377 GCTCAATCCT
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
109 11 0.07
110 135 0.90
111 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (111 bp):
ATCATTTTCTTGACTTATAGCTCAATCCCGATCATCCGATCTTGGCTCAATCTAGATCATTTTCT
TGACTTGTGAGTTTCATCTCAGTCATCCGACCTTAACTCAATCTAA
Found at i:12415309 original size:165 final size:163
Alignment explanation
Indices: 12415067--12415485 Score: 387
Period size: 164 Copynumber: 2.6 Consensus size: 163
12415057 TGATCATTCA
* * ** * * * * *
12415067 ATCTTGACTCAGTCCAGATCATTTT-TTGACTTATGGTTCAGTCCC-GATCAACCGATCTTAGCT
1 ATCTTGACTCAATCTAGATCATTTTCTAAACTTGTGATTCAATCCCAG-TCATCCGATCTTAACT
* ** * * *
12415130 CAGTCTAGATCATTTTTTTGACTTGTGAT-TTTGTCTTGGTCATCTGACCTTCACTCAGTCAAGA
65 CAGTCTAAATCATTTTTTTGACTTGTGATCAGTGTC--GATCATCCGACCTTCACTCAATCAAGA
* *
12415194 TCATTTTCTTGACTTGTGACTCAATCCCAGTTATCTG
128 TCATTTTCTTGACTTGTGACTCAATCCCA-ATATCCG
* * ** * *
12415231 ATTTTGGCTCAATCTAGATCATTTTCTTGACTTGTAGTTTC-ATCTCAGTCATCCGATCTTAACT
1 ATCTTGACTCAATCTAGATCATTTTCTAAACTTGT-GATTCAATCCCAGTCATCCGATCTTAACT
* * * * * ** *
12415295 CAATCTAAATCATTTTCTTGACTTATAGCTCAGTGTCGATCATCCGATCTTGGCTCAATCTAGAT
65 CAGTCTAAATCATTTTTTTGACTTGT-GATCAGTGTCGATCATCCGACCTTCACTCAATCAAGAT
* * *
12415360 TATTTTCTTGACTTGTGGCTCAATCCTAATATCCG
129 CATTTTCTTGACTTGTGACTCAATCCCAATATCCG
* * * ** * *
12415395 ATCTTGACTCAATTTATATCATTTTCTAAATTTGTGATTCAATCCCAGTCATTTGATCTCAACTT
1 ATCTTGACTCAATCTAGATCATTTTCTAAACTTGTGATTCAATCCCAGTCATCCGATCTTAACTC
12415460 AGTCTAAATCATTTTTTTGACTTGTG
66 AGTCTAAATCATTTTTTTGACTTGTG
12415486 GTTCAATTTC
Statistics
Matches: 204, Mismatches: 45, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
163 5 0.02
164 95 0.47
165 93 0.46
166 7 0.03
167 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (163 bp):
ATCTTGACTCAATCTAGATCATTTTCTAAACTTGTGATTCAATCCCAGTCATCCGATCTTAACTC
AGTCTAAATCATTTTTTTGACTTGTGATCAGTGTCGATCATCCGACCTTCACTCAATCAAGATCA
TTTTCTTGACTTGTGACTCAATCCCAATATCCG
Found at i:12415526 original size:55 final size:55
Alignment explanation
Indices: 12415426--12415530 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
12415416 TTTTCTAAAT
*
12415426 TTGTGATTCAATCCCAGTCATTTGATCTCAACTTAGTCTAAATCATTTTTTTGAC
1 TTGTGATTCAATCCCAGTCATTTGATCTCAACTTAGTCCAAATCATTTTTTTGAC
* ** * * *
12415481 TTGTGGTTCAATTTCAGTGATTTGATCTCAA-TTCGATCCAGATCATTTTT
1 TTGTGATTCAATCCCAGTCATTTGATCTCAACTTAG-TCCAAATCATTTTT
12415531 ATTTTTCAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.07
55 39 0.93
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (55 bp):
TTGTGATTCAATCCCAGTCATTTGATCTCAACTTAGTCCAAATCATTTTTTTGAC
Found at i:12415793 original size:17 final size:17
Alignment explanation
Indices: 12415773--12415835 Score: 126
Period size: 17 Copynumber: 3.7 Consensus size: 17
12415763 AAACTTGAAA
12415773 TCTTACGAATCTTCCAT
1 TCTTACGAATCTTCCAT
12415790 TCTTACGAATCTTCCAT
1 TCTTACGAATCTTCCAT
12415807 TCTTACGAATCTTCCAT
1 TCTTACGAATCTTCCAT
12415824 TCTTACGAATCT
1 TCTTACGAATCT
12415836 CAAACCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (17 bp):
TCTTACGAATCTTCCAT
Found at i:12415797 original size:34 final size:34
Alignment explanation
Indices: 12415759--12415832 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
12415749 CTAGAATCTC
*
12415759 TACGAAACTTGAAATCTTACGAATCTTCCATTCT
1 TACGAAACTTCAAATCTTACGAATCTTCCATTCT
* * *
12415793 TACGAATCTTCCATTCTTACGAATCTTCCATTCT
1 TACGAAACTTCAAATCTTACGAATCTTCCATTCT
12415827 TACGAA
1 TACGAA
12415833 TCTCAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (34 bp):
TACGAAACTTCAAATCTTACGAATCTTCCATTCT
Found at i:12415853 original size:34 final size:34
Alignment explanation
Indices: 12415759--12415843 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
12415749 CTAGAATCTC
* * *
12415759 TACGAAACTTGAAATCTTACGAATCTTCCATTCT
1 TACGAATCTTCAAACCTTACGAATCTTCCATTCT
* **
12415793 TACGAATCTTCCATTCTTACGAATCTTCCATTCT
1 TACGAATCTTCAAACCTTACGAATCTTCCATTCT
12415827 TACGAATC-TCAAACCTT
1 TACGAATCTTCAAACCTT
12415844 TGTGAATCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 6 0.14
34 38 0.86
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (34 bp):
TACGAATCTTCAAACCTTACGAATCTTCCATTCT
Found at i:12416448 original size:51 final size:51
Alignment explanation
Indices: 12416326--12416468 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 51
12416316 ATAATTAAAG
* * * * *
12416326 GATTTTTGGGATTTAATTCCAAAATCAATTGGCATTAAAAATGATGTGAAAA
1 GATTTTTAGGATTTAATTCTAGAATCAATTCGCATT-AAAACGATGTGAAAA
* * * *
12416378 GATGTTCAGGATTTGATTCTAGAATCAATTCACATTAAAACGATGTTG-AAA
1 GATTTTTAGGATTTAATTCTAGAATCAATTCGCATTAAAACGATG-TGAAAA
* * *
12416429 GATTTTTTGTATTTAATTCTAGAATCAATTCGTATTAAAA
1 GATTTTTAGGATTTAATTCTAGAATCAATTCGCATTAAAA
12416469 TGAAAATCAA
Statistics
Matches: 74, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
51 44 0.59
52 30 0.41
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (51 bp):
GATTTTTAGGATTTAATTCTAGAATCAATTCGCATTAAAACGATGTGAAAA
Found at i:12421694 original size:23 final size:24
Alignment explanation
Indices: 12421650--12421694 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12421640 ATTTTAATTG
*
12421650 TTTAAAAAAGACAGATTTTATCCA
1 TTTAAAAAAGACAGATTATATCCA
*
12421674 TTTAAAATAGACAG-TTATATC
1 TTTAAAAAAGACAGATTATATC
12421695 TATAGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (24 bp):
TTTAAAAAAGACAGATTATATCCA
Found at i:12426848 original size:26 final size:26
Alignment explanation
Indices: 12426811--12426866 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
12426801 CAATATAGTA
*
12426811 ATAAAATGTTATTTTATTTAAAGTTT
1 ATAAAATGTTATTTTATTTAAAGCTT
*
12426837 ATAAAATTTTATTTTATTTAAAGCTT
1 ATAAAATGTTATTTTATTTAAAGCTT
12426863 ATAA
1 ATAA
12426867 GTGTCTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
ATAAAATGTTATTTTATTTAAAGCTT
Found at i:12426947 original size:23 final size:23
Alignment explanation
Indices: 12426920--12426964 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
12426910 AAGAATGAGG
12426920 TAAGTTTGTATAAAATAAACAGA
1 TAAGTTTGTATAAAATAAACAGA
*
12426943 TAAGTTTGTTTAAAATAAACAG
1 TAAGTTTGTATAAAATAAACAG
12426965 TTTTAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (23 bp):
TAAGTTTGTATAAAATAAACAGA
Found at i:12432194 original size:24 final size:24
Alignment explanation
Indices: 12432165--12432211 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12432155 GTAAAATAAT
*
12432165 GTTGTAGAGATGTATTCTAACAAA
1 GTTGTAGAGATGTAATCTAACAAA
12432189 GTTGTAGAGATGTAATCTAACAA
1 GTTGTAGAGATGTAATCTAACAA
12432212 CCTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (24 bp):
GTTGTAGAGATGTAATCTAACAAA
Found at i:12436626 original size:22 final size:22
Alignment explanation
Indices: 12436601--12436642 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12436591 TTTTATGAAA
* *
12436601 AATTAATTGGTTAATAAAAACT
1 AATTAATTGATCAATAAAAACT
*
12436623 AATTTATTGATCAATAAAAA
1 AATTAATTGATCAATAAAAA
12436643 TAAGATAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
AATTAATTGATCAATAAAAACT
Found at i:12437523 original size:20 final size:20
Alignment explanation
Indices: 12437478--12437533 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
12437468 TTGAGATGAC
* *
12437478 AGGATCGATTGATATTGATAG
1 AGGATCGATTGGT-TCGATAG
12437499 AGGATCGATTGGTTCGATAG
1 AGGATCGATTGGTTCGATAG
* *
12437519 GGGATCAATTGGTTC
1 AGGATCGATTGGTTC
12437534 TTGAATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (20 bp):
AGGATCGATTGGTTCGATAG
Found at i:12439032 original size:20 final size:22
Alignment explanation
Indices: 12439004--12439057 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
12438994 TTAATAATAG
12439004 ATACTTTTAATATA-AAATA-TA
1 ATAC-TTTAATATATAAATATTA
12439025 ATACTTTAATA-ATAAATATTA
1 ATACTTTAATATATAAATATTA
*
12439046 ATATTTTAATAT
1 ATACTTTAATAT
12439058 TAATAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 12 0.41
21 16 0.55
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
ATACTTTAATATATAAATATTA
Found at i:12439062 original size:20 final size:20
Alignment explanation
Indices: 12438990--12439062 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
12438980 ATTTTTGTTA
*
12438990 TAAT-TTAATAATAGATACTTT
1 TAATATTAATATTA-ATA-TTT
* *
12439011 TAATA-TAAAATATAATACTT
1 TAATATTAATAT-TAATATTT
*
12439031 TAATAATAAATATTAATATTT
1 TAAT-ATTAATATTAATATTT
12439052 TAATATTAATA
1 TAATATTAATA
12439063 AAAATAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
20 12 0.29
21 23 0.56
22 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (20 bp):
TAATATTAATATTAATATTT
Found at i:12439071 original size:44 final size:44
Alignment explanation
Indices: 12439015--12439111 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
12439005 TACTTTTAAT
*
12439015 ATAAAATATAATACTTTAATAATAAATATTAATATTTT-AATATTA
1 ATAAAA-ATAATACTTTAAGAATAAATA-TAATATTTTAAATATTA
* * ** *
12439060 ATAAAAATAATATTTTCAGAATAGTTATACTATTTTAAATATTA
1 ATAAAAATAATACTTTAAGAATAAATATAATATTTTAAATATTA
12439104 ATATAAAA
1 ATA-AAAA
12439112 ATTAATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
43 8 0.18
44 26 0.59
45 10 0.23
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (44 bp):
ATAAAAATAATACTTTAAGAATAAATATAATATTTTAAATATTA
Found at i:12439228 original size:16 final size:16
Alignment explanation
Indices: 12439207--12439258 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 16
12439197 AAATTTAATA
12439207 ATTTTAATAATAAATG
1 ATTTTAATAATAAATG
12439223 A-TTT--TAAT--AT-
1 ATTTTAATAATAAATG
12439233 ATTTTAATAATAAATG
1 ATTTTAATAATAAATG
12439249 ATTTTTAATA
1 A-TTTTAATA
12439259 TTTTAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 13
0.69 0.00 0.31
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
13 8 0.28
15 5 0.17
16 2 0.07
17 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
ATTTTAATAATAAATG
Found at i:12439239 original size:26 final size:26
Alignment explanation
Indices: 12439200--12439266 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
12439190 ATTCTTGAAA
12439200 TTTAATA-ATTTTAATAATAAATGAT
1 TTTAATATATTTTAATAATAAATGAT
12439225 TTTAATATATTTTAATAATAAATGAT
1 TTTAATATATTTTAATAATAAATGAT
*
12439251 TTTTA-ATATTTTAATA
1 TTTAATATATTTTAATA
12439267 GTCATATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTAATATATTTTAATAATAAATGAT
Found at i:12440251 original size:25 final size:25
Alignment explanation
Indices: 12440223--12440323 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
12440213 TTTATATATT
12440223 TATATTAT-ATTTTATATAAAAATTA
1 TATATTATAATTTT-TATAAAAATTA
* * *
12440248 TATATAATAATTTTTATTAATATTA
1 TATATTATAATTTTTATAAAAATTA
* * *
12440273 TAT-TTTTTATTTTTATTAAATATATA
1 TATATTATAATTTTTA-TAAAAAT-TA
* *
12440299 TATATATATAATTATTATTAAAATT
1 TATAT-TATAATTTTTATAAAAATT
12440324 TTAAATCATA
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
24 9 0.15
25 25 0.42
26 11 0.19
27 6 0.10
28 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTATAATTTTTATAAAAATTA
Found at i:12440279 original size:18 final size:19
Alignment explanation
Indices: 12440244--12440283 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
12440234 TTATATAAAA
12440244 ATTATATATAATAATTTTT
1 ATTATATATAATAATTTTT
* *
12440263 ATTA-ATATTATATTTTTT
1 ATTATATATAATAATTTTT
12440281 ATT
1 ATT
12440284 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTATATATAATAATTTTT
Found at i:12442423 original size:2 final size:2
Alignment explanation
Indices: 12442416--12442452 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12442406 TTGATAATGC
12442416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12442453 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12442457 original size:2 final size:2
Alignment explanation
Indices: 12442452--12442492 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
12442442 ATATATATAT
12442452 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12442493 AGGTTTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12445699 original size:2 final size:2
Alignment explanation
Indices: 12445692--12445717 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12445682 TGGATCCCTC
12445692 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12445718 GAATGTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12448722 original size:2 final size:2
Alignment explanation
Indices: 12448717--12448747 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12448707 AATGTTTTTT
12448717 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12448748 TTTCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12451357 original size:32 final size:33
Alignment explanation
Indices: 12451313--12451405 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 33
12451303 TCCTTTAAAA
*
12451313 AAAAATTCTATATCATTTTAAAAAATTAAGT-G
1 AAAACTTCTATATCATTTTAAAAAATTAAGTAG
* * * ** *
12451345 ACAATTTTTATATCGGTTT-AAAAATTAAATAG
1 AAAACTTCTATATCATTTTAAAAAATTAAGTAG
*
12451377 AAAACTTCT-TATCATTTTAAAATATTAAG
1 AAAACTTCTATATCATTTTAAAAAATTAAG
12451406 CAAAAATTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
31 17 0.37
32 29 0.63
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (33 bp):
AAAACTTCTATATCATTTTAAAAAATTAAGTAG
Found at i:12451430 original size:63 final size:64
Alignment explanation
Indices: 12451313--12451432 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 64
12451303 TCCTTTAAAA
** * * * *
12451313 AAAAATTCTATATCATTTTAAAAAATTAAGTGACAATTTTTATATCGGTTTAAAAATTAAATAG
1 AAAAATTCTATATCATTTTAAAAAATTAAGCAAAAATTTATATATCGCTATAAAAATTAAATAG
* * *
12451377 AAAACTTCT-TATCATTTTAAAATATTAAGCAAAAATTTATATATCTCTATAAAAAT
1 AAAAATTCTATATCATTTTAAAAAATTAAGCAAAAATTTATATATCGCTATAAAAAT
12451433 AGCTTTATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
63 39 0.83
64 8 0.17
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (64 bp):
AAAAATTCTATATCATTTTAAAAAATTAAGCAAAAATTTATATATCGCTATAAAAATTAAATAG
Found at i:12451737 original size:32 final size:32
Alignment explanation
Indices: 12451697--12451827 Score: 83
Period size: 32 Copynumber: 4.1 Consensus size: 32
12451687 TGATTTGTTT
12451697 AAATGATATGAAATTTTTTAATAAATATTTTA
1 AAATGATATGAAATTTTTTAATAAATATTTTA
* * * *
12451729 AAATGATATTG--AGTTTTTATTTAATTTTTTA
1 AAATGATA-TGAAATTTTTTAATAAATATTTTA
* * * * * *
12451760 AACTAATATAGAAA-ATTTTACTTAATTTTTTA
1 AAATGATAT-GAAATTTTTTAATAAATATTTTA
* *
12451792 AAATGATAT-AGAATATTTTTAA-AAAGATTTTG
1 AAATGATATGA-AAT-TTTTTAATAAATATTTTA
12451824 AAAT
1 AAAT
12451828 TTGAACTTAA
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
30 2 0.03
31 25 0.33
32 41 0.54
33 8 0.11
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (32 bp):
AAATGATATGAAATTTTTTAATAAATATTTTA
Found at i:12457997 original size:19 final size:20
Alignment explanation
Indices: 12457959--12458012 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
12457949 TCATGTAAGA
*
12457959 TTTAGGATTTCACATAGGGT
1 TTTAGGATTTCACCTAGGGT
12457979 TTTAGGATTT-ACCTAGGGT
1 TTTAGGATTTCACCTAGGGT
*
12457998 TTAAGG-TTTCACCTA
1 TTTAGGATTTCACCTA
12458013 AAATTTAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 3 0.10
19 18 0.58
20 10 0.32
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (20 bp):
TTTAGGATTTCACCTAGGGT
Found at i:12458044 original size:25 final size:26
Alignment explanation
Indices: 12458016--12458070 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
12458006 TCACCTAAAA
*
12458016 TTTAGGATTTCA-TTTAAGGTTTTAT
1 TTTAGGATTTCACTTTAAGGTTTCAT
*
12458041 TTTAGGATTTCACTTTAGGGTTTCAT
1 TTTAGGATTTCACTTTAAGGTTTCAT
12458067 TTTA
1 TTTA
12458071 AGGTTTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.55
Consensus pattern (26 bp):
TTTAGGATTTCACTTTAAGGTTTCAT
Found at i:12458057 original size:13 final size:13
Alignment explanation
Indices: 12458016--12458070 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
12458006 TCACCTAAAA
12458016 TTTAGGATTTCAT
1 TTTAGGATTTCAT
* *
12458029 TTAAGG-TTTTAT
1 TTTAGGATTTCAT
*
12458041 TTTAGGATTTCAC
1 TTTAGGATTTCAT
*
12458054 TTTAGGGTTTCAT
1 TTTAGGATTTCAT
12458067 TTTA
1 TTTA
12458071 AGGTTTTGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.55
Consensus pattern (13 bp):
TTTAGGATTTCAT
Found at i:12458075 original size:13 final size:13
Alignment explanation
Indices: 12458023--12458076 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
12458013 AAATTTAGGA
12458023 TTTCA-TTTAAGG
1 TTTCATTTTAAGG
*
12458035 TTTTATTTT-AGG
1 TTTCATTTTAAGG
* *
12458047 ATTTCACTTTAGGG
1 -TTTCATTTTAAGG
12458061 TTTCATTTTAAGG
1 TTTCATTTTAAGG
12458074 TTT
1 TTT
12458077 TGGGTTTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
12 7 0.21
13 24 0.73
14 2 0.06
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (13 bp):
TTTCATTTTAAGG
Found at i:12458362 original size:3 final size:3
Alignment explanation
Indices: 12458354--12458393 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
12458344 TATATTAAAC
*
12458354 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12458394 CTTTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12458576 original size:3 final size:3
Alignment explanation
Indices: 12458568--12458599 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12458558 AAGAAAGTAC
12458568 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12458600 CAAATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12458709 original size:106 final size:107
Alignment explanation
Indices: 12458598--12458795 Score: 319
Period size: 107 Copynumber: 1.9 Consensus size: 107
12458588 TAATAATAAT
* *
12458598 AACAAATTTTCAA-TTTTTTTAAGAAAAAAAGGAAATCCAACTAAATAAAATAATGGGA-TCATT
1 AACAAAATTTCAATTTTTTTTAAGAAAAAAAAGAAATCCAACTAAATAAAATAATGGGACT-ATT
* * *
12458661 ACCATCTTTATCTATTCTCCTAAAAAAAAGCTTATTAGAAATA
65 ACCATATCTATCTATTCTACTAAAAAAAAGCTTATTAGAAATA
*
12458704 AACAAAATTTCAATTTTTTTTAAGAAAAAAAAGAAATGCAACTAAATAAAATAATGGGACTATTA
1 AACAAAATTTCAATTTTTTTTAAGAAAAAAAAGAAATCCAACTAAATAAAATAATGGGACTATTA
12458769 CCATATCTATCTATTCTACTAAAAAAA
66 CCATATCTATCTATTCTACTAAAAAAA
12458796 CTTGCTGCCT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
106 12 0.14
107 71 0.85
108 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (107 bp):
AACAAAATTTCAATTTTTTTTAAGAAAAAAAAGAAATCCAACTAAATAAAATAATGGGACTATTA
CCATATCTATCTATTCTACTAAAAAAAAGCTTATTAGAAATA
Found at i:12459677 original size:21 final size:23
Alignment explanation
Indices: 12459630--12459677 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
12459620 CCCGAATGCT
*
12459630 TTTTTTCTATTGGTTTCTTCT-C
1 TTTTTTCTATTGGTTTCTTATCC
* *
12459652 TTTTTT-TTTTGGTTTTTTATCC
1 TTTTTTCTATTGGTTTCTTATCC
12459674 TTTT
1 TTTT
12459678 ACGCCTCTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.04, C:0.12, G:0.08, T:0.75
Consensus pattern (23 bp):
TTTTTTCTATTGGTTTCTTATCC
Found at i:12461050 original size:96 final size:93
Alignment explanation
Indices: 12460820--12461050 Score: 220
Period size: 95 Copynumber: 2.4 Consensus size: 93
12460810 CTGGATAACC
* *
12460820 TAGGCTTAAAATTTTATTGGTGCCATTAAACTAGGCTT-AAATTTTAATTGGTGCCAACTAAACT
1 TAGGCTT-AAATTTTATTGGTGCCAATAAATTAGGCTTAAAATTTTAATTGGTGCCAACTAAACT
12460884 AGATTAAATTTTCGTTGGGTGCTAACTAGAT
65 AGATTAAA-TTTC-TTGGGTGCTAACTAGAT
* * * * * * * *
12460915 TGGGTTTAAATTTTTATTTGTTCCAGATAATTTAGGCTTAAAATTTTCATTGGATGCCAATTAGA
1 TAGGCTTAAA-TTTTATTGGTGCCA-ATAAATTAGGCTTAAAATTTTAATTGG-TGCCAACTAAA
*
12460980 CTGGACTTAAA-TT-TTGGGTGCTAGA-TA-ATT
63 CTAGA-TTAAATTTCTTGGGTGCTA-ACTAGA-T
12461010 TAGGCTTAAATTTTCATTGGATGCCAACTAAATTAGGCTTA
1 TAGGCTTAAATTTT-ATTGG-TGCCAA-TAAATTAGGCTTA
12461051 GATTTGCATT
Statistics
Matches: 110, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
94 8 0.07
95 43 0.39
96 27 0.25
97 14 0.13
98 13 0.12
99 5 0.05
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (93 bp):
TAGGCTTAAATTTTATTGGTGCCAATAAATTAGGCTTAAAATTTTAATTGGTGCCAACTAAACTA
GATTAAATTTCTTGGGTGCTAACTAGAT
Found at i:12461061 original size:33 final size:33
Alignment explanation
Indices: 12460820--12461110 Score: 178
Period size: 33 Copynumber: 9.0 Consensus size: 33
12460810 CTGGATAACC
* *
12460820 TAGGCTTAAAATTTT-ATTGG-TGCC-ATTAAAC
1 TAGGCTT-AAATTTTCATTGGATGCCAACTAAAT
* *
12460851 TAGGCTTAAATTTTAATTGG-TGCCAACTAAAC
1 TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
* * * * *
12460883 TA-GATTAAATTTTCGTTGGGTGCTAACTAGAT
1 TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
* * * * * *
12460915 TGGGTTTAAATTTTTATTTG-TTCCAGA-TAATT
1 TAGGCTTAAATTTTCATTGGATGCCA-ACTAAAT
* * *
12460947 TAGGCTTAAAATTTTCATTGGATGCCAATTAGAC
1 TAGGCTT-AAATTTTCATTGGATGCCAACTAAAT
* * *
12460981 T-GGACTTAAA--TT--TTGGGTGCTAGA-TAATT
1 TAGG-CTTAAATTTTCATTGGATGCCA-ACTAAAT
12461010 TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
1 TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
* * * * *
12461043 TAGGCTTAGATTTGCATTGAATGTCAACTAAAC
1 TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
*
12461076 TAGGCTTAAAACTTTTCATAGG-TGCCAACTAAAT
1 TAGGCTT-AAA-TTTTCATTGGATGCCAACTAAAT
12461110 T
1 T
12461111 GAATTTAAAT
Statistics
Matches: 199, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
29 17 0.09
30 10 0.05
31 34 0.17
32 30 0.15
33 78 0.39
34 23 0.12
35 7 0.04
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
TAGGCTTAAATTTTCATTGGATGCCAACTAAAT
Found at i:12461204 original size:33 final size:33
Alignment explanation
Indices: 12461162--12461245 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
12461152 GCTAATCTGG
*
12461162 TTTAAATTTTTATTGGGTGCCAAATAAGCTAGA
1 TTTAAATTTTCATTGGGTGCCAAATAAGCTAGA
** * *
12461195 TTTAAATTTTCATT-GGTGTTAAATAAGTTAGG
1 TTTAAATTTTCATTGGGTGCCAAATAAGCTAGA
*
12461227 CTTAAGATTTTCATTGGGT
1 TTTAA-ATTTTCATTGGGT
12461246 AAATCTCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
32 18 0.42
33 22 0.51
34 3 0.07
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (33 bp):
TTTAAATTTTCATTGGGTGCCAAATAAGCTAGA
Found at i:12461285 original size:30 final size:30
Alignment explanation
Indices: 12461245--12461311 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
12461235 TTTCATTGGG
12461245 TAAATCTCATTGGTGTCAGG-TAAATTGGACT
1 TAAAT-TCATTGGTG-CAGGTTAAATTGGACT
* **
12461276 TAAATTCATTGGTGCCGGTTAAATTGGGTT
1 TAAATTCATTGGTGCAGGTTAAATTGGACT
12461306 TAAATT
1 TAAATT
12461312 TTCATTGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 24 0.75
31 5 0.16
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (30 bp):
TAAATTCATTGGTGCAGGTTAAATTGGACT
Found at i:12461362 original size:33 final size:33
Alignment explanation
Indices: 12461295--12461386 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
12461285 TGGTGCCGGT
* *
12461295 TAAATTGGGTTTAAATTTTCATTGAGTACCAGC
1 TAAACTGGGTTTAAATTTTCATTGATTACCAGC
* ***
12461328 TAGACTGGGTTTAAATTTTCATTGATTTTTAGC
1 TAAACTGGGTTTAAATTTTCATTGATTACCAGC
* **
12461361 TAAACTGAGTTTAAAACTTCATTGAT
1 TAAACTGGGTTTAAATTTTCATTGAT
12461387 GAACTTAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.42
Consensus pattern (33 bp):
TAAACTGGGTTTAAATTTTCATTGATTACCAGC
Done.